🚿A Tidy Tool for Phylogenetic Tree Data Manipulation

A feature rich and easy to use phylogenetic tree editor

Fungal Identification Pipeline

Draw a phylogenetic tree, along with a table of metadata

A pipeline to construct phylogenetic tree using BUSCOs

The prog is written to construct the phylogenetic tree (dendrogram) based on DNA/Protein sequences of species given in a dataset using Agglomerative and Divisive Hierarchical Clustering and to compare Agglomerative and Divisive methods

web application for DNA comparison, alignment and phylogenetic tree. Released on 2020.

Code and data description to reproduce Tietje et al. (2022) Global variation in diversification rate and species richness are unlinked in plants (https://doi.org/10.1073/pnas.2120662119)

Nei-Saitou neighbor-joining algorithm for phylogeny construction/inference. Neighbor joining is a bottom-up (agglomerative) clustering method for the creation of phylogenetic/evolutionary trees.

Implementation of the tree triplet distance algorithms from our paper "Cache oblivious algorithms for computing the triplet distance between trees", published in ESA 2017

A stand-alone tool for evaluating simple statistics of orthologs

Script for creating a tANI distance matrix for use in phylogenetic reconstruction.

A couple of assignments I did for a course in computational (molecular) biology @ University of Warsaw

Script for sorting FASTA sequences by clade in a given tree topology.

Easy-to-use C++ library for the live tracking of lineage and coalescence trees in individual-based forward-in-time simulations.

Example files for Benin NGS capacity building project